AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016199.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016199.01.T01 MTR_3g085430 90.909 132 10 2 1 131 18 148 1.13e-76 226
MsG0380016199.01.T01 MTR_1g082660 36.667 90 56 1 3 91 89 178 6.87e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016199.01.T01 AT5G43250 55.639 133 52 4 3 133 2 129 2.44e-40 132
MsG0380016199.01.T01 AT1G08970 33.065 124 74 3 3 117 68 191 2.24e-11 60.1
MsG0380016199.01.T01 AT1G08970 33.065 124 74 3 3 117 68 191 2.24e-11 60.1
MsG0380016199.01.T01 AT1G08970 33.065 124 74 3 3 117 68 191 2.24e-11 60.1
MsG0380016199.01.T01 AT1G08970 33.065 124 74 3 3 117 68 191 2.24e-11 60.1
MsG0380016199.01.T01 AT1G54830 37.079 89 55 1 4 91 59 147 7.39e-11 58.5
MsG0380016199.01.T01 AT1G54830 37.079 89 55 1 4 91 59 147 7.39e-11 58.5
MsG0380016199.01.T01 AT1G54830 37.079 89 55 1 4 91 59 147 7.39e-11 58.5

Find 43 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCTCCATGGGTTCCGGTTC+AGG 0.246040 3:-80340489 None:intergenic
TCGAGTAGAAAATCACTTAT+TGG 0.263581 3:-80340300 None:intergenic
TCCGGTTCAGGTTCAGGTTC+CGG 0.296003 3:-80340477 None:intergenic
CAACTTCGGCTTCAGACTTT+CGG 0.357492 3:-80340431 None:intergenic
ATGGGTTCCGGTTCAGGTTC+AGG 0.371834 3:-80340483 None:intergenic
GAGTTCAGAAGCGTTGTTCT+TGG 0.377847 3:+80340158 MsG0380016199.01.T01:CDS
TATGCCTCCTCCATGGGTTC+CGG 0.409906 3:-80340495 None:intergenic
GCCGGAACCTGAACCTGAAC+CGG 0.418474 3:+80340476 MsG0380016199.01.T01:CDS
ATCTTCTTCACTCTACTCTT+CGG 0.421448 3:-80340105 None:intergenic
CGATCCGCAACCGCCGCCGC+TGG 0.421993 3:-80340363 None:intergenic
GTACCAACCGGAACAGATTT+AGG 0.424572 3:-80340387 None:intergenic
GGATCGGCCTAAATCTGTTC+CGG 0.447912 3:+80340380 MsG0380016199.01.T01:CDS
TCAGGTTCAGGTTCCGGCGG+TGG 0.450466 3:-80340471 None:intergenic
GTTCTTGGTGTCACGATCTA+CGG 0.459375 3:+80340173 MsG0380016199.01.T01:CDS
CAGCGGCGGCGGTTGCGGAT+CGG 0.466428 3:+80340364 MsG0380016199.01.T01:CDS
TAAACCAGCGGCGGCGGTTG+CGG 0.474107 3:+80340359 MsG0380016199.01.T01:CDS
ATCTGATAAACCAGCGGCGG+CGG 0.487271 3:+80340353 MsG0380016199.01.T01:CDS
CACAACCTATGCCTCCTCCA+TGG 0.514005 3:-80340502 None:intergenic
ACTCTACTCTTCGGAAACTC+TGG 0.522689 3:-80340096 None:intergenic
TCAATGCGGCGAGTACCAAC+CGG 0.541474 3:-80340399 None:intergenic
ACAACCTATGCCTCCTCCAT+GGG 0.542610 3:-80340501 None:intergenic
CTCTGGACAAAGACGTGAAG+AGG 0.546039 3:+80340133 MsG0380016199.01.T01:CDS
TTCGCAGTTTCCGACGGCAT+CGG 0.549112 3:-80340330 None:intergenic
AATTGCAATTGTTATGGCAG+AGG 0.550560 3:+80340047 None:intergenic
TTGCGCTTGAGCATCAACTT+CGG 0.551263 3:-80340445 None:intergenic
GGAACCCATGGAGGAGGCAT+AGG 0.556067 3:+80340497 MsG0380016199.01.T01:CDS
TCAGATTTCGCAGTTTCCGA+CGG 0.560923 3:-80340336 None:intergenic
GTAGAAAATCACTTATTGGA+CGG 0.569952 3:-80340296 None:intergenic
TGAACCTGAACCGGAACCCA+TGG 0.579146 3:+80340485 MsG0380016199.01.T01:CDS
TCAAGCGCAAGCGCCACCGC+CGG 0.588095 3:+80340458 MsG0380016199.01.T01:CDS
CGGCCTAAATCTGTTCCGGT+TGG 0.590306 3:+80340384 MsG0380016199.01.T01:CDS
AGTGAAGAAGATAATCACTC+TGG 0.599750 3:+80340116 MsG0380016199.01.T01:CDS
CGATTTGCTTCCGATGCCGT+CGG 0.600977 3:+80340320 MsG0380016199.01.T01:CDS
TGAACCGGAACCCATGGAGG+AGG 0.608400 3:+80340491 MsG0380016199.01.T01:CDS
TCTGGACAAAGACGTGAAGA+GGG 0.629567 3:+80340134 MsG0380016199.01.T01:CDS
ACCTGAACCGGAACCCATGG+AGG 0.681479 3:+80340488 MsG0380016199.01.T01:CDS
GGTTCAGGTTCAGGTTCCGG+CGG 0.690810 3:-80340474 None:intergenic
TATTGAGAAGAAGCGCAAGA+CGG 0.692763 3:+80340239 MsG0380016199.01.T01:CDS
GTTACTTGCTGAAAAGTCTG+CGG 0.696867 3:+80340209 MsG0380016199.01.T01:CDS
GAAATCTGATAAACCAGCGG+CGG 0.702085 3:+80340350 MsG0380016199.01.T01:CDS
TGCGAAATCTGATAAACCAG+CGG 0.703898 3:+80340347 MsG0380016199.01.T01:CDS
GAAGCTTGAACATATAATCG+CGG 0.733476 3:+80340263 MsG0380016199.01.T01:CDS
TTCGGAAGATCTGATCAATG+CGG 0.759168 3:-80340413 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GTAGAAAATCACTTATTGGA+CGG - Chr3:80340299-80340318 None:intergenic 30.0%
TCGAGTAGAAAATCACTTAT+TGG - Chr3:80340303-80340322 None:intergenic 30.0%
AGTGAAGAAGATAATCACTC+TGG + Chr3:80340116-80340135 MsG0380016199.01.T01:CDS 35.0%
ATCTTCTTCACTCTACTCTT+CGG - Chr3:80340108-80340127 None:intergenic 35.0%
GAAGCTTGAACATATAATCG+CGG + Chr3:80340263-80340282 MsG0380016199.01.T01:CDS 35.0%
TGCGAAATCTGATAAACCAG+CGG + Chr3:80340347-80340366 MsG0380016199.01.T01:CDS 40.0%
TTCGGAAGATCTGATCAATG+CGG - Chr3:80340416-80340435 None:intergenic 40.0%
! GTTACTTGCTGAAAAGTCTG+CGG + Chr3:80340209-80340228 MsG0380016199.01.T01:CDS 40.0%
! TATTGAGAAGAAGCGCAAGA+CGG + Chr3:80340239-80340258 MsG0380016199.01.T01:CDS 40.0%
ACTCTACTCTTCGGAAACTC+TGG - Chr3:80340099-80340118 None:intergenic 45.0%
CAACTTCGGCTTCAGACTTT+CGG - Chr3:80340434-80340453 None:intergenic 45.0%
GAAATCTGATAAACCAGCGG+CGG + Chr3:80340350-80340369 MsG0380016199.01.T01:CDS 45.0%
GTACCAACCGGAACAGATTT+AGG - Chr3:80340390-80340409 None:intergenic 45.0%
TCAGATTTCGCAGTTTCCGA+CGG - Chr3:80340339-80340358 None:intergenic 45.0%
TCTGGACAAAGACGTGAAGA+GGG + Chr3:80340134-80340153 MsG0380016199.01.T01:CDS 45.0%
TTGCGCTTGAGCATCAACTT+CGG - Chr3:80340448-80340467 None:intergenic 45.0%
!! GAGTTCAGAAGCGTTGTTCT+TGG + Chr3:80340158-80340177 MsG0380016199.01.T01:CDS 45.0%
!! GTTCTTGGTGTCACGATCTA+CGG + Chr3:80340173-80340192 MsG0380016199.01.T01:CDS 45.0%
CTCTGGACAAAGACGTGAAG+AGG + Chr3:80340133-80340152 MsG0380016199.01.T01:CDS 50.0%
GGATCGGCCTAAATCTGTTC+CGG + Chr3:80340380-80340399 MsG0380016199.01.T01:CDS 50.0%
ATCTGATAAACCAGCGGCGG+CGG + Chr3:80340353-80340372 MsG0380016199.01.T01:CDS 55.0%
CGGCCTAAATCTGTTCCGGT+TGG + Chr3:80340384-80340403 MsG0380016199.01.T01:CDS 55.0%
TATGCCTCCTCCATGGGTTC+CGG - Chr3:80340498-80340517 None:intergenic 55.0%
TCAATGCGGCGAGTACCAAC+CGG - Chr3:80340402-80340421 None:intergenic 55.0%
TGAACCTGAACCGGAACCCA+TGG + Chr3:80340485-80340504 MsG0380016199.01.T01:CDS 55.0%
TTCGCAGTTTCCGACGGCAT+CGG - Chr3:80340333-80340352 None:intergenic 55.0%
! ATGGGTTCCGGTTCAGGTTC+AGG - Chr3:80340486-80340505 None:intergenic 55.0%
! CGATTTGCTTCCGATGCCGT+CGG + Chr3:80340320-80340339 MsG0380016199.01.T01:CDS 55.0%
! TCCGGTTCAGGTTCAGGTTC+CGG - Chr3:80340480-80340499 None:intergenic 55.0%
ACCTGAACCGGAACCCATGG+AGG + Chr3:80340488-80340507 MsG0380016199.01.T01:CDS 60.0%
GCCGGAACCTGAACCTGAAC+CGG + Chr3:80340476-80340495 MsG0380016199.01.T01:CDS 60.0%
TCCTCCATGGGTTCCGGTTC+AGG - Chr3:80340492-80340511 None:intergenic 60.0%
TGAACCGGAACCCATGGAGG+AGG + Chr3:80340491-80340510 MsG0380016199.01.T01:CDS 60.0%
! GGTTCAGGTTCAGGTTCCGG+CGG - Chr3:80340477-80340496 None:intergenic 60.0%
TAAACCAGCGGCGGCGGTTG+CGG + Chr3:80340359-80340378 MsG0380016199.01.T01:CDS 65.0%
! TCAGGTTCAGGTTCCGGCGG+TGG - Chr3:80340474-80340493 None:intergenic 65.0%
TCAAGCGCAAGCGCCACCGC+CGG + Chr3:80340458-80340477 MsG0380016199.01.T01:CDS 70.0%
CAGCGGCGGCGGTTGCGGAT+CGG + Chr3:80340364-80340383 MsG0380016199.01.T01:CDS 75.0%
! CGATCCGCAACCGCCGCCGC+TGG - Chr3:80340366-80340385 None:intergenic 80.0%
Chromosome Type Strat End Strand Name
Chr3 gene 80340060 80340518 80340060 ID=MsG0380016199.01;Name=MsG0380016199.01
Chr3 mRNA 80340060 80340518 80340060 ID=MsG0380016199.01.T01;Parent=MsG0380016199.01;Name=MsG0380016199.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|152
Chr3 exon 80340060 80340518 80340060 ID=MsG0380016199.01.T01:exon:11394;Parent=MsG0380016199.01.T01
Chr3 CDS 80340060 80340518 80340060 ID=MsG0380016199.01.T01:cds;Parent=MsG0380016199.01.T01
Gene Sequence

>MsG0380016199.01.T01

ATGGCAGAGGAAGAAGAGAAAACGTTGTCGTTTGAACCAGAGTTTCCGAAGAGTAGAGTGAAGAAGATAATCACTCTGGACAAAGACGTGAAGAGGGTGAGTTCAGAAGCGTTGTTCTTGGTGTCACGATCTACGGAGCTTTTTTTACAGTTACTTGCTGAAAAGTCTGCGGAAGTTGCTATTGAGAAGAAGCGCAAGACGGTGAAGCTTGAACATATAATCGCGGTGAAGAGAAACCGTCCAATAAGTGATTTTCTACTCGATTTGCTTCCGATGCCGTCGGAAACTGCGAAATCTGATAAACCAGCGGCGGCGGTTGCGGATCGGCCTAAATCTGTTCCGGTTGGTACTCGCCGCATTGATCAGATCTTCCGAAAGTCTGAAGCCGAAGTTGATGCTCAAGCGCAAGCGCCACCGCCGGAACCTGAACCTGAACCGGAACCCATGGAGGAGGCATAG

Protein sequence

>MsG0380016199.01.T01

MAEEEEKTLSFEPEFPKSRVKKIITLDKDVKRVSSEALFLVSRSTELFLQLLAEKSAEVAIEKKRKTVKLEHIIAVKRNRPISDFLLDLLPMPSETAKSDKPAAAVADRPKSVPVGTRRIDQIFRKSEAEVDAQAQAPPPEPEPEPEPMEEA*